Has yosh r-s3 pipe umm just k&n filter 14 tooth front srocket 49 in back thats the only thing that has been done to the bike

There you go....... K&N filter makes it LEAN as hell. Yoshi pipe makes it even more LEAN. If the jets are stock, I bet it runs like crap. Most people don't have the patience to get the carbs tuned to the K&N filter and end up going back to stock. Check all the hoses on the airbox & carbs too. I've heard about someone else have similar issues because a hose was off.

Another guy had one of his slides separate from the diaphragm, in 1 of his carbs, making the bike fall on its face around 8-9k, check those too.

Yes i do know how to take the carbs apart umm the hoses are all on i guess im gonna try to figure out how to not make the carbs run lean

That's all jetting. You increased the airflow to your engine when you put the filter and the exhaust on. But the fuel flow didn't change because you didn't change the jets in the carbs. Now there is not enough fuel for the amount of air getting to your engine; i.e. your fuel/air ratio is lean.

Jet kits aren't that expensive, and let you get the most horsepower out of your bike.